org.gcube.data.spd.obisplugin

Class ObisClient

java.lang.Object

org.gcube.data.spd.obisplugin.ObisClient

public class ObisClient
extends Object

Author:

"Federico De Faveri defaveri@isti.cnr.it"

Field Summary

Fields

Modifier and Type	Field and Description
protected static SimpleDateFormat	DATE_FORMAT
protected static DateUtil	DATE_UTIL
protected static Set<Integer>	found
protected static Map<String,org.gcube.data.spd.model.products.TaxonomyItem>	foundTaxon
protected static org.gcube.common.core.utils.logging.GCUBELog	logger
protected static SimpleDateFormat	sdf
static Cache<Integer,org.gcube.data.spd.model.products.TaxonomyItem>	taxonomyItemCache

Constructor Summary

Constructors

Constructor and Description
ObisClient()

Method Summary

Methods

Modifier and Type	Method and Description
protected static void	fillCommonNames(PluginSession session, int taxonNameId, org.gcube.data.spd.model.products.ResultItem item)
protected static void	fillCommonNames(PluginSession session, int taxonNameId, org.gcube.data.spd.model.products.TaxonomyItem item)
protected static void	fillProducts(PluginSession session, int speciesId, int datasetId, String key, SearchFilters filters, org.gcube.data.spd.model.products.ResultItem item)
protected static void	fillTaxon(PluginSession session, int id, org.gcube.data.spd.model.products.Taxon taxon, String credits, String citation) Fills the node with the taxon information.
protected static void	fillTaxonomyItem(PluginSession session, int id, org.gcube.data.spd.model.products.TaxonomyItem item, String credits, String citation)
protected static String	generateCitation()
protected static String	generateCredits()
protected static org.gcube.data.spd.model.products.OccurrencePoint	generateOccurrencePoint(ResultSet rs, String credits, org.gcube.data.spd.model.products.DataSet dataSet)
protected static void	generateResultItems(PluginSession session, ResultSet rs, SearchFilters filters, Writer<org.gcube.data.spd.model.products.ResultItem> writer)
protected static void	generateTaxonomyItems(PluginSession session, ResultSet rs, Writer<org.gcube.data.spd.model.products.TaxonomyItem> writer)
static org.gcube.data.spd.model.BasisOfRecord	getBasisOfRecord(String basis)
protected static List<org.gcube.data.spd.model.products.TaxonomyItem>	getChildrenTaxon(PluginSession session, int id)
static Set<String>	getCommonNames(PluginSession session, String scientificName)
static org.gcube.data.spd.model.products.OccurrencePoint	getOccurrenceById(PluginSession session, String id)
static void	getOccurrences(PluginSession session, String key, Writer<org.gcube.data.spd.model.products.OccurrencePoint> writer)
static int	getOccurrencesCount(PluginSession session, int taxonId, int datasetId, SearchFilters filters)
static void	getScientificNames(PluginSession session, String commonName, Writer<String> writer)
static void	getTaxonByCommonName(PluginSession session, String commonName, Writer<org.gcube.data.spd.model.products.TaxonomyItem> writer)
protected static org.gcube.data.spd.model.products.TaxonomyItem	getTaxonById(PluginSession session, int id)
static void	getTaxonByScientificNames(PluginSession session, String scientificName, Writer<org.gcube.data.spd.model.products.TaxonomyItem> writer)
static void	main(String[] args)
protected static void	navigate(String indentation, PluginSession session, int id)
static void	searchByCommonName(PluginSession session, String searchTerm, SearchFilters filters, Writer<org.gcube.data.spd.model.products.ResultItem> writer)
static void	searchByScientificName(PluginSession session, String searchTerm, SearchFilters filters, Writer<org.gcube.data.spd.model.products.ResultItem> writer)

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Field Detail

logger

protected static org.gcube.common.core.utils.logging.GCUBELog logger

DATE_FORMAT

protected static final SimpleDateFormat DATE_FORMAT

DATE_UTIL

protected static final DateUtil DATE_UTIL

sdf

protected static final SimpleDateFormat sdf

taxonomyItemCache

public static final Cache<Integer,org.gcube.data.spd.model.products.TaxonomyItem> taxonomyItemCache

found

protected static Set<Integer> found

foundTaxon

protected static Map<String,org.gcube.data.spd.model.products.TaxonomyItem> foundTaxon

Constructor Detail

ObisClient

public ObisClient()

Method Detail

getOccurrencesCount

public static int getOccurrencesCount(PluginSession session,
                      int taxonId,
                      int datasetId,
                      SearchFilters filters)
                               throws SQLException

Throws:

SQLException

getOccurrences

public static void getOccurrences(PluginSession session,
                  String key,
                  Writer<org.gcube.data.spd.model.products.OccurrencePoint> writer)
                           throws Exception

Throws:

Exception

generateOccurrencePoint

protected static org.gcube.data.spd.model.products.OccurrencePoint generateOccurrencePoint(ResultSet rs,
                                                                        String credits,
                                                                        org.gcube.data.spd.model.products.DataSet dataSet)
                                                                                    throws SQLException

Throws:

SQLException

getOccurrenceById

public static org.gcube.data.spd.model.products.OccurrencePoint getOccurrenceById(PluginSession session,
                                                                  String id)
                                                                           throws Exception

Throws:

Exception

getBasisOfRecord

public static org.gcube.data.spd.model.BasisOfRecord getBasisOfRecord(String basis)

searchByCommonName

public static void searchByCommonName(PluginSession session,
                      String searchTerm,
                      SearchFilters filters,
                      Writer<org.gcube.data.spd.model.products.ResultItem> writer)
                               throws Exception

Throws:

Exception

fillProducts

protected static void fillProducts(PluginSession session,
                int speciesId,
                int datasetId,
                String key,
                SearchFilters filters,
                org.gcube.data.spd.model.products.ResultItem item)
                            throws SQLException

Throws:

SQLException

searchByScientificName

public static void searchByScientificName(PluginSession session,
                          String searchTerm,
                          SearchFilters filters,
                          Writer<org.gcube.data.spd.model.products.ResultItem> writer)
                                   throws Exception

Throws:

Exception

generateResultItems

protected static void generateResultItems(PluginSession session,
                       ResultSet rs,
                       SearchFilters filters,
                       Writer<org.gcube.data.spd.model.products.ResultItem> writer)
                                   throws Exception

Throws:

Exception

fillTaxon

protected static void fillTaxon(PluginSession session,
             int id,
             org.gcube.data.spd.model.products.Taxon taxon,
             String credits,
             String citation)
                         throws SQLException

Fills the node with the taxon information. Also information about parent are retrieved.

Parameters:

connection - the db connection.

id - the taxon id.

taxonNode - the node to fill.

Throws:

SQLException

fillTaxonomyItem

protected static void fillTaxonomyItem(PluginSession session,
                    int id,
                    org.gcube.data.spd.model.products.TaxonomyItem item,
                    String credits,
                    String citation)
                                throws Exception

Throws:

Exception

fillCommonNames

protected static void fillCommonNames(PluginSession session,
                   int taxonNameId,
                   org.gcube.data.spd.model.products.TaxonomyItem item)
                               throws SQLException

Throws:

SQLException

fillCommonNames

protected static void fillCommonNames(PluginSession session,
                   int taxonNameId,
                   org.gcube.data.spd.model.products.ResultItem item)
                               throws SQLException

Throws:

SQLException

getCommonNames

public static Set<String> getCommonNames(PluginSession session,
                         String scientificName)
                                  throws SQLException

Throws:

SQLException

getScientificNames

public static void getScientificNames(PluginSession session,
                      String commonName,
                      Writer<String> writer)
                               throws SQLException

Throws:

SQLException

getTaxonByScientificNames

public static void getTaxonByScientificNames(PluginSession session,
                             String scientificName,
                             Writer<org.gcube.data.spd.model.products.TaxonomyItem> writer)
                                      throws Exception

Throws:

Exception

getTaxonByCommonName

public static void getTaxonByCommonName(PluginSession session,
                        String commonName,
                        Writer<org.gcube.data.spd.model.products.TaxonomyItem> writer)
                                 throws Exception

Throws:

Exception

generateTaxonomyItems

protected static void generateTaxonomyItems(PluginSession session,
                         ResultSet rs,
                         Writer<org.gcube.data.spd.model.products.TaxonomyItem> writer)
                                     throws SQLException,
                                            Exception

Throws:

SQLException

Exception

getChildrenTaxon

protected static List<org.gcube.data.spd.model.products.TaxonomyItem> getChildrenTaxon(PluginSession session,
                                                                    int id)
                                                                                throws SQLException

Throws:

SQLException

getTaxonById

protected static org.gcube.data.spd.model.products.TaxonomyItem getTaxonById(PluginSession session,
                                                          int id)
                                                                      throws Exception

Throws:

Exception

generateCitation

protected static String generateCitation()

generateCredits

protected static String generateCredits()

main

public static void main(String[] args)
                 throws Exception

Parameters:

args -

Throws:

Exception

navigate

protected static void navigate(String indentation,
            PluginSession session,
            int id)
                        throws SQLException

Throws:

SQLException